User: sam237337

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sam23733740
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Posts by sam237337

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Comment: C: Availability of DrugMatrix database?
... Update: An alternative platform that provides the set of DrugMatrix samples is [GEO][1], and the processed signatures can be accessed on the [CREEDS platform][2]. [1]: https://urldefense.proofpoint.com/v2/url?u=https-3A__www.ncbi.nlm.nih.gov_geo_query_acc.cgi-3Facc-3DGSE59927&d=DwMFaQ&c= ...
written 5 months ago by sam23733740
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Availability of DrugMatrix database?
... I have been attempting to access the [DrugMatrix toxicogenomics database][1] for the past few weeks, but continue to see a ["Website Offline" message][2] at this site. I had emailed the provided contact a few weeks ago to inquire about its availability, but I haven't received a response. Does anyone ...
database drug written 5 months ago by sam23733740
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Comment: C: Availability of Broad Institute BRD perturbagen identifier mappings?
... Update: This solution doesn't directly address the question I originally posed, but I did find that the [LINCS Small Molecules Catalog][1] site contains the mappings between LINCS LSM ID values (which are also included in my dataset) and drug names, so that I ultimately didn't need the mappings for ...
written 5 months ago by sam23733740
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Availability of Broad Institute BRD perturbagen identifier mappings?
... I have a dataset that includes identifiers from the Broad Institute of the format BRD-{9-valued alphanumeric string}, where each ID specifies a perturbagen. I'm trying to locate a master list of the definitions/names of these BRD IDs, specifying how they map to other platforms such as PubChem and Ch ...
mappings identifiers written 5 months ago by sam23733740
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Comment: C: Comprehensive & integrated drug/target database?
... Thanks for your helpful suggestions, Denise! I will definitely explore them. ...
written 5 months ago by sam23733740
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Comment: C: Best way to deal with numerous synonyms when converting between drug identifiers
... Many thanks for the info you provided, Natasha! I will review it in detail, as it seems like it will be very helpful. ...
written 6 months ago by sam23733740
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Comprehensive & integrated drug/target database?
... The [Drug2Gene resource][1] integrates 19 different drug-target databases, and is distinguished by its standardization and unification across those different platforms (including ChEMBL, DrugBank, Uniprot, HGNC and ChEBI). However, when attempting to access this resource (http://www.drug2gene.com) f ...
database drug target written 6 months ago by sam23733740 • updated 5 months ago by Denise - Open Targets4.6k
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Best way to deal with numerous synonyms when converting between drug identifiers?
... I have a file with over 1 million ChEMBL drug identifiers, for which I need to acquire the common name of each drug. I have used the [PubChem Identifier Exchange][1] to map the ChEMBL IDs to synonyms, but the challenge I'm finding is that each ChEMBL ID can have numerous synonyms, and the drug names ...
ontology mapping synonym written 6 months ago by sam23733740 • updated 5 months ago by Biostar ♦♦ 20
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Comment: C: Best practice for handling BioGRID PPI interactor aliases?
... Thanks for your clarifications, Jean-Karim; that is informative, and I'll consider this advice when deciding how to use the BioGRID data. ...
written 6 months ago by sam23733740
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Comment: C: Best practice for handling BioGRID PPI interactor aliases?
... Thanks for sharing your input, Jean-Karim. My plan is to report PPIs using Entrez gene symbols, and I was just wondering whether [some or all of] the aliases provided by BioGRID might also be defined within the Entrez platform, and/or whether those aliases might originate from other sources. You had ...
written 6 months ago by sam23733740

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